Publications by authors named "David Sims"

100Publications

Exhausted CD4 T Cells during Malaria Exhibit Reduced mTORc1 Activity Correlated with Loss of T-bet Expression.

J Immunol 2020 Sep 17;205(6):1608-1619. Epub 2020 Aug 17.

The Lydia Becker Institute of Immunology and Inflammation, Faculty of Biology, Medicine and Health, University of Manchester, Manchester M13 9PT, United Kingdom;

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September 2020

The Caribbean needs big marine protected areas.

Science 2020 02;367(6479):749

Marine Biological Association of the UK, Plymouth, PL1 2PB, UK.

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February 2020

An ontogenetic switch drives the positive and negative selection of B cells.

Proc Natl Acad Sci U S A 2020 02 4;117(7):3718-3727. Epub 2020 Feb 4.

Medical Research Council Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, OX3 9DS Oxford, United Kingdom;

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February 2020

Optimal searching behaviour generated intrinsically by the central pattern generator for locomotion.

Elife 2019 11 1;8. Epub 2019 Nov 1.

Department of Zoology, University of Cambridge, Cambridge, United Kingdom.

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November 2019

Global spatial risk assessment of sharks under the footprint of fisheries.

Authors:
Nuno Queiroz Nicolas E Humphries Ana Couto Marisa Vedor Ivo da Costa Ana M M Sequeira Gonzalo Mucientes António M Santos Francisco J Abascal Debra L Abercrombie Katya Abrantes David Acuña-Marrero André S Afonso Pedro Afonso Darrell Anders Gonzalo Araujo Randall Arauz Pascal Bach Adam Barnett Diego Bernal Michael L Berumen Sandra Bessudo Lion Natalia P A Bezerra Antonin V Blaison Barbara A Block Mark E Bond Ramón Bonfil Russell W Bradford Camrin D Braun Edward J Brooks Annabelle Brooks Judith Brown Barry D Bruce Michael E Byrne Steven E Campana Aaron B Carlisle Demian D Chapman Taylor K Chapple John Chisholm Christopher R Clarke Eric G Clua Jesse E M Cochran Estelle C Crochelet Laurent Dagorn Ryan Daly Daniel Devia Cortés Thomas K Doyle Michael Drew Clinton A J Duffy Thor Erikson Eduardo Espinoza Luciana C Ferreira Francesco Ferretti John D Filmalter G Chris Fischer Richard Fitzpatrick Jorge Fontes Fabien Forget Mark Fowler Malcolm P Francis Austin J Gallagher Enrico Gennari Simon D Goldsworthy Matthew J Gollock Jonathan R Green Johan A Gustafson Tristan L Guttridge Hector M Guzman Neil Hammerschlag Luke Harman Fábio H V Hazin Matthew Heard Alex R Hearn John C Holdsworth Bonnie J Holmes Lucy A Howey Mauricio Hoyos Robert E Hueter Nigel E Hussey Charlie Huveneers Dylan T Irion David M P Jacoby Oliver J D Jewell Ryan Johnson Lance K B Jordan Salvador J Jorgensen Warren Joyce Clare A Keating Daly James T Ketchum A Peter Klimley Alison A Kock Pieter Koen Felipe Ladino Fernanda O Lana James S E Lea Fiona Llewellyn Warrick S Lyon Anna MacDonnell Bruno C L Macena Heather Marshall Jaime D McAllister Rory McAuley Michael A Meÿer John J Morris Emily R Nelson Yannis P Papastamatiou Toby A Patterson Cesar Peñaherrera-Palma Julian G Pepperell Simon J Pierce Francois Poisson Lina Maria Quintero Andrew J Richardson Paul J Rogers Christoph A Rohner David R L Rowat Melita Samoilys Jayson M Semmens Marcus Sheaves George Shillinger Mahmood Shivji Sarika Singh Gregory B Skomal Malcolm J Smale Laurenne B Snyders German Soler Marc Soria Kilian M Stehfest John D Stevens Simon R Thorrold Mariana T Tolotti Alison Towner Paulo Travassos John P Tyminski Frederic Vandeperre Jeremy J Vaudo Yuuki Y Watanabe Sam B Weber Bradley M Wetherbee Timothy D White Sean Williams Patricia M Zárate Robert Harcourt Graeme C Hays Mark G Meekan Michele Thums Xabier Irigoien Victor M Eguiluz Carlos M Duarte Lara L Sousa Samantha J Simpson Emily J Southall David W Sims

Nature 2019 08 24;572(7770):461-466. Epub 2019 Jul 24.

Marine Biological Association of the United Kingdom, Plymouth, UK.

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August 2019

Trade in mislabeled endangered sharks.

Science 2019 05;364(6442):743-744

Marine Biological Association of the UK, Plymouth PL1 2PB, UK.

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May 2019

Co-transcriptional Loading of RNA Export Factors Shapes the Human Transcriptome.

Mol Cell 2019 07 16;75(2):310-323.e8. Epub 2019 May 16.

Sheffield Institute For Nucleic Acids (SInFoNiA) and Department of Molecular Biology and Biotechnology, The University of Sheffield, Firth Court, Western Bank, Sheffield S10 2TN, UK. Electronic address:

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July 2019

Whole-body and segmental analysis of body composition in adult males with achondroplasia using dual X-ray absorptiometry.

PLoS One 2019 19;14(3):e0213806. Epub 2019 Mar 19.

Health, Exercise and Active Living Research, Manchester Metropolitan University, Manchester, England.

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December 2019

Genome-wide study of hair colour in UK Biobank explains most of the SNP heritability.

Nat Commun 2018 12 10;9(1):5271. Epub 2018 Dec 10.

MRC Human Genetics Unit, Institute of Genetics and Molecular Medicine, University of Edinburgh, Crewe Road, Edinburgh, EH4 2XU, UK.

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December 2018

Persistence of environmental DNA in marine systems.

Commun Biol 2018 5;1:185. Epub 2018 Nov 5.

School of Biological Sciences, University of Bristol, Life Sciences Building, Tyndall Avenue, Bristol, BS8 1TQ, UK.

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November 2018

Morphological and Mechanical Properties of the Human Patella Tendon in Adult Males With Achondroplasia.

Front Physiol 2018 20;9:867. Epub 2018 Jul 20.

Health, Exercise and Active Living Research, Manchester Metropolitan University, Manchester, United Kingdom.

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July 2018

The Oxygen Consumption and Metabolic Cost of Walking and Running in Adults With Achondroplasia.

Front Physiol 2018 18;9:410. Epub 2018 Apr 18.

Health, Exercise and Active Living Research Centre, Department of Exercise and Sport Science, Manchester Metropolitan University, Manchester, United Kingdom.

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April 2018

Genomic Response to Vitamin D Supplementation in the Setting of a Randomized, Placebo-Controlled Trial.

EBioMedicine 2018 May 10;31:133-142. Epub 2018 Apr 10.

Wellcome Centre for Human Genetics (WHG), Nuffield Department of Medicine, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK. Electronic address:

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May 2018

Shortfin mako sharks threatened by inaction.

Science 2018 03;359(6382):1342

CIBIO/InBIO-Universidade do Porto, 4485-668 Vairão, Portugal.

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March 2018

Specific force of the vastus lateralis in adults with achondroplasia.

J Appl Physiol (1985) 2018 03 16;124(3):696-703. Epub 2017 Nov 16.

Health, Exercise and Active Living Research, Manchester Metropolitan University , Cheshire , United Kingdom.

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March 2018

Dominant Mutations in GRM1 Cause Spinocerebellar Ataxia Type 44.

Am J Hum Genet 2017 Sep;101(3):451-458

Nuffield Department of Clinical Neurosciences, University of Oxford, 6th Floor West Wing, John Radcliffe Hospital, Oxford OX3 9DU, UK; Oxford Centre for Genomic Medicine, Oxford University Hospitals NHS Trust, Oxford OX3 7HE, UK. Electronic address:

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September 2017

Familial childhood-onset progressive cerebellar syndrome associated with the mutation.

Neurol Genet 2017 Apr 27;3(2):e145. Epub 2017 Mar 27.

Department of Neurosciences (F.J.), King's College Hospital, London; MRC Centre for Neuromuscular Diseases and Department of Molecular Neuroscience (F.J., H.H., M.G.H.), UCL Institute of Neurology; MRC Computational Genomics Analysis and Training Programme (K.F., D.S., A.H.), University of Oxford; Central Manchester University Hospitals (H.K.); and NIHR UCLH Biomedical Research Centre (S.M.S.), Department of Clinical and Experimental Epilepsy, UCL Institute of Neurology, Queen Square, UK.

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April 2017

Catastrophic Aortic Extravasation in a Patient with Prior Lung Cancer.

J Vasc Interv Radiol 2016 Sep;27(9):1337

Cardiac Surgery Group, Wuesthoff Hospital, Rockledge, Florida.

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September 2016

Acoustic telemetry and network analysis reveal the space use of multiple reef predators and enhance marine protected area design.

Proc Biol Sci 2016 07;283(1834)

Marine Biological Association of the United Kingdom, The Laboratory, Citadel Hill, Plymouth PL1 2PB, UK Ocean and Earth Science, National Oceanography Centre Southampton, University of Southampton, Waterfront Campus, European Way, Southampton SO14 3ZH, UK Centre for Biological Sciences, University of Southampton, Building 85, Highfield Campus, Southampton SO17 1BJ, UK.

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July 2016

Rationalizing spatial exploration patterns of wild animals and humans through a temporal discounting framework.

Proc Natl Acad Sci U S A 2016 08 6;113(31):8747-52. Epub 2016 Jul 6.

Department of Neuroscience, Johns Hopkins University, Baltimore, MD 21205;

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August 2016

DNA barcoding identifies a cosmopolitan diet in the ocean sunfish.

Sci Rep 2016 07 4;6:28762. Epub 2016 Jul 4.

CIBIO - Universidade do Porto, Centro de Investigação em Biodiversidade e Recursos Genéticos, Campus Agrário de Vairão, Rua Padre Armando Quintas, 4485-668 Vairão, Portugal.

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July 2016

Deep Brain Stimulation in Three Related Cases of North Sea Progressive Myoclonic Epilepsy from South Africa.

Mov Disord Clin Pract 2017 Mar-Apr;4(2):249-253. Epub 2016 Jun 16.

Division of Human Genetics School of Pathology Faculty of Health Sciences University of the Witwatersrand Johannesburg South Africa.

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June 2016

Fish stocks: Unlimited by-catch limits recovery.

Nature 2016 Mar;531(7595):448

CIBIO/InBIO - University of Porto, Portugal.

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March 2016

Ocean-wide tracking of pelagic sharks reveals extent of overlap with longline fishing hotspots.

Proc Natl Acad Sci U S A 2016 Feb 25;113(6):1582-7. Epub 2016 Jan 25.

Marine Biological Association of the United Kingdom, The Laboratory, Plymouth PL1 2PB, United Kingdom; Ocean and Earth Science, National Oceanography Centre Southampton, Waterfront Campus, University of Southampton, Southampton SO14 3ZH, United Kingdom; Centre for Biological Sciences, Highfield Campus, University of Southampton, Southampton SO17 1BJ, United Kingdom

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February 2016

Analytical Validation and Application of a Targeted Next-Generation Sequencing Mutation-Detection Assay for Use in Treatment Assignment in the NCI-MPACT Trial.

J Mol Diagn 2016 Jan 18;18(1):51-67. Epub 2015 Nov 18.

Molecular Characterization and Clinical Assay Development Laboratory, Leidos Biomedical Research Inc., and Frederick National Laboratory for Cancer Research, Frederick, Maryland; Division of Cancer Treatment and Diagnosis, National Cancer Institute, Bethesda, Maryland.

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January 2016

Hippo Stabilises Its Adaptor Salvador by Antagonising the HECT Ubiquitin Ligase Herc4.

PLoS One 2015 30;10(6):e0131113. Epub 2015 Jun 30.

Apoptosis and Proliferation Control Laboratory, The Francis Crick Institute, Lincoln's Inn Fields Laboratory, 44 Lincoln's Inn Fields, London, United Kingdom.

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April 2016

Intrinsic Lévy behaviour in organisms--searching for a mechanism: Comment on "Liberating Lévy walk research from the shackles of optimal foraging" by A.M. Reynolds.

Authors:
David W Sims

Phys Life Rev 2015 Sep 12;14:111-4. Epub 2015 Jun 12.

Marine Biological Association of the United Kingdom, The Laboratory, Citadel Hill, Plymouth PL1 2PB, UK; Ocean and Earth Science, National Oceanography Centre Southampton, University of Southampton, Waterfront Campus, European Way, Southampton SO14 3ZH, UK; Centre for Biological Sciences, Building 85, University of Southampton, Highfield Campus, Southampton SO17 1BJ, UK. Electronic address:

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September 2015

A tale of two seas: contrasting patterns of population structure in the small-spotted catshark across Europe.

R Soc Open Sci 2014 Nov 12;1(3):140175. Epub 2014 Nov 12.

Marine Biological Association of the United Kingdom, The Laboratory, Plymouth PL1 2PB, UK ; School of Biological Sciences , University of Bristol , Bristol Life Sciences Building, 24 Tyndall Avenue, Bristol BS8 1TQ, UK.

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November 2014

Repeated, long-distance migrations by a philopatric predator targeting highly contrasting ecosystems.

Sci Rep 2015 Jun 9;5:11202. Epub 2015 Jun 9.

The Guy Harvey Research Institute, Nova Southeastern University Oceanographic Center, 8000 North Ocean Drive, Dania Beach, Florida 33004, United States of America.

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June 2015

De novo point mutations in patients diagnosed with ataxic cerebral palsy.

Brain 2015 Jul 16;138(Pt 7):1817-32. Epub 2015 May 16.

4 Nuffield Department of Clinical Neurosciences, University of Oxford, Oxford OX3 9DU, UK 16 Department of Clinical Genetics, Churchill Hospital, Oxford University Hospitals NHS Trust, Oxford, OX3 7LJ, UK

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July 2015

Fisheries: Better policing for fishy catch data.

Nature 2015 Apr;520(7549):623

Marine Biological Association of the United Kingdom, Plymouth, UK.

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April 2015

SPG7 mutations are a common cause of undiagnosed ataxia.

Neurology 2015 Mar 13;84(11):1174-6. Epub 2015 Feb 13.

From the Wellcome Trust Centre for Mitochondrial Research (G.P., A.P., H.G., V.W., L.T., G.E., R.H., P.F.C.) and Institute of Genetic Medicine (G.P., A.P., H.G., R.H., P.F.C.), Newcastle University, Newcastle-upon-Tyne; John Radcliffe Hospital (J.M., K.F., D.S., A.N.), University of Oxford; Royal Hallamshire Hospital (M.H.), University of Sheffield; and Churchill Hospital (A.N.), Oxford, UK.

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March 2015

Hierarchical random walks in trace fossils and the origin of optimal search behavior.

Proc Natl Acad Sci U S A 2014 Jul 14;111(30):11073-8. Epub 2014 Jul 14.

Department of Earth Sciences, The Natural History Museum, London SW7 5BD, United Kingdom.

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July 2014

Long non-coding RNAs and enhancer RNAs regulate the lipopolysaccharide-induced inflammatory response in human monocytes.

Nat Commun 2014 Jun 9;5:3979. Epub 2014 Jun 9.

1] Department of Pharmacy and Pharmacology, University of Bath, Claverton Down, BA2 7AY Bath, UK [2] Respiratory Research Group, University Hospital of South Manchester, University of Manchester, Southmoor Road, Manchester M23 9LY, UK [3] Airways Disease, National Heart and Lung Institute, Imperial College, London SW3 6LY, UK.

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June 2014

Optimal foraging strategies: Lévy walks balance searching and patch exploitation under a very broad range of conditions.

J Theor Biol 2014 Oct 2;358:179-93. Epub 2014 Jun 2.

Marine Biological Association of the United Kingdom, The Laboratory, Citadel Hill, Plymouth PL1 2PB, UK; Ocean and Earth Science, National Oceanography Centre Southampton, University of Southampton, Waterfront Campus, Southampton SO14 3ZH, UK; Centre for Biological Sciences, Building 85, University of Southampton, Highfield Campus, Southampton SO17 1BJ, UK.

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October 2014

Scaling laws of ambush predator 'waiting' behaviour are tuned to a common ecology.

Proc Biol Sci 2014 May 11;281(1782):20132997. Epub 2014 Mar 11.

Marine Biological Association of the United Kingdom, The Laboratory, , Citadel Hill, Plymouth PL1 2PB, UK, European Institute of Marine Studies (IUEM), University of Western Britanny, , Place Nicolas Copernic 29280, Plouzané, France, School of Computing and Mathematics, University of Plymouth, , Drake Circus, Plymouth PL4 8AA, UK, Rothamsted Research, , Harpenden AL5 2JQ, UK, Ocean and Earth Science, National Oceanography Centre Southampton, University of Southampton, , Waterfront Campus, Southampton SO14 3ZH, UK, Centre for Biological Sciences, University of Southampton, , Building 85, Highfield Campus, Southampton SO17 1BJ, UK.

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May 2014

An in vivo functional screen identifies ST6GalNAc2 sialyltransferase as a breast cancer metastasis suppressor.

Cancer Discov 2014 Mar 11;4(3):304-17. Epub 2014 Feb 11.

1The Breakthrough Breast Cancer Research Centre, The Institute of Cancer Research; 2Cardiovascular Division, King's College London, British Heart Foundation Centre for Research Excellence, James Black Centre; and 3Division of Molecular Biosciences, Imperial College London, London, United Kingdom.

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March 2014

Sequencing depth and coverage: key considerations in genomic analyses.

Nat Rev Genet 2014 Feb;15(2):121-32

Computational Genomics Analysis and Training Programme, Medical Research Council Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, Le Gros Clark Building, University of Oxford, Parks Road, Oxford OX1 3PT, UK.

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February 2014

CGAT: computational genomics analysis toolkit.

Bioinformatics 2014 May 5;30(9):1290-1. Epub 2014 Jan 5.

CGAT, MRC Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, Parks Road, Oxford OX1 3PT, UK.

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May 2014

Estimation of total glomerular number using an integrated disector method in embryonic and postnatal kidneys.

Can J Kidney Health Dis 2014 17;1:12. Epub 2014 Jun 17.

Department of Biomedical Sciences, Atlantic Veterinary College, University of Prince Edward Island, 550 University Avenue, Charlottetown, PE C1A 4P3 Canada.

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March 2015

Genome-wide profiling of genetic synthetic lethality identifies CDK12 as a novel determinant of PARP1/2 inhibitor sensitivity.

Cancer Res 2014 Jan 15;74(1):287-97. Epub 2013 Nov 15.

Authors' Affiliations: The CRUK Gene Function Laboratory, Functional Genomics Laboratory, Breakthrough Breast Cancer Research Centre, and Tumour Profiling Unit, The Institute of Cancer Research, London, United Kingdom.

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January 2014

Next-generation sequencing of advanced prostate cancer treated with androgen-deprivation therapy.

Eur Urol 2014 Jul 14;66(1):32-9. Epub 2013 Aug 14.

Institute of Cancer Sciences, College of Medical, Veterinary and Life Sciences, University of Glasgow, Cancer Research UK Beatson Institute, Glasgow, UK; Cancer Research UK Beatson Institute, The Beatson Institute for Cancer Research, Glasgow, UK. Electronic address:

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July 2014

A scoping review of personalisation in the UK: approaches to social work and people with learning disabilities.

Health Soc Care Community 2014 Jan 6;22(1):13-21. Epub 2013 May 6.

Social Work and Health Development, School of Health and Social Care, University of Greenwich, London, UK.

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January 2014

Elasmobranch cognitive ability: using electroreceptive foraging behaviour to demonstrate learning, habituation and memory in a benthic shark.

Anim Cogn 2014 Jan 26;17(1):55-65. Epub 2013 Apr 26.

Department of Environmental Science and Technology, Cranfield University, Cranfield, Bedfordshire, MK43 0AL, UK,

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January 2014

Epigenetic conservation at gene regulatory elements revealed by non-methylated DNA profiling in seven vertebrates.

Elife 2013 Feb 26;2:e00348. Epub 2013 Feb 26.

Department of Biochemistry , University of Oxford , Oxford , United Kingdom ; Weatherall Institute of Molecular Medicine, University of Oxford , Oxford , United Kingdom.

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February 2013

Functional role of matrix metalloproteinase-8 in stem/progenitor cell migration and their recruitment into atherosclerotic lesions.

Circ Res 2013 Jan 15;112(1):35-47. Epub 2012 Oct 15.

William Harvey Research Institute, Barts and The London School of Medicine and Dentistry, John Vane Science Building, Charterhouse Square, London EC1M 6BQ, UK.

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January 2013

Foraging success of biological Lévy flights recorded in situ.

Proc Natl Acad Sci U S A 2012 May 23;109(19):7169-74. Epub 2012 Apr 23.

Marine Biological Association of the United Kingdom, The Laboratory, Citadel Hill, Plymouth PL1 2PB, United Kingdom.

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May 2012

Spatial dynamics and expanded vertical niche of blue sharks in oceanographic fronts reveal habitat targets for conservation.

PLoS One 2012 29;7(2):e32374. Epub 2012 Feb 29.

Marine Biological Association of the United Kingdom, The Laboratory, Citadel Hill, Plymouth, United Kingdom.

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July 2012

First analysis of multiple paternity in an oviparous shark, the small-spotted catshark (Scyliorhinus canicula L.).

J Hered 2012 Mar-Apr;103(2):166-73. Epub 2011 Nov 3.

Marine Biological Association of the United Kingdom, The Laboratory, Plymouth PL1 2PB, UK.

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June 2012

Synthesis and development of poly(N-hydroxyethyl acrylamide)-ran-3-acrylamidophenylboronic acid polymer fluid for potential application in affinity sensing of glucose.

J Diabetes Sci Technol 2011 Sep 1;5(5):1060-7. Epub 2011 Sep 1.

Department of Chemistry and Biochemistry, University of South Carolina, Columbia, South Carolina 29208, USA.

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September 2011

Lévy flight and Brownian search patterns of a free-ranging predator reflect different prey field characteristics.

J Anim Ecol 2012 Mar 17;81(2):432-42. Epub 2011 Oct 17.

Marine Biological Association of the United Kingdom, The Laboratory, Citadel Hill, Plymouth PL1 2PB, UK.

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March 2012

Continental shelf-wide response of a fish assemblage to rapid warming of the sea.

Curr Biol 2011 Sep 15;21(18):1565-70. Epub 2011 Sep 15.

School of Biological Sciences, University of Bristol, Bristol BS8 1UG, UK.

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September 2011

Comparative RNAi screening identifies a conserved core metazoan actinome by phenotype.

J Cell Biol 2011 Sep;194(5):789-805

MRC Laboratory for Molecular Cell Biology, University College London, London WC1E 6BT, England, UK.

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September 2011

Comprehensive genomic analysis of a BRCA2 deficient human pancreatic cancer.

PLoS One 2011 5;6(7):e21639. Epub 2011 Jul 5.

Breakthrough Breast Cancer Research Centre, The Institute of Cancer Research, London, United Kingdom.

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December 2011

The physiological response of the Caribbean reef shark (Carcharhinus perezi) to longline capture.

Comp Biochem Physiol A Mol Integr Physiol 2012 Jun 13;162(2):94-100. Epub 2011 May 13.

Shark Research and Conservation Program, Cape Eleuthera Institute, Eleuthera, The Bahamas.

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June 2012

Reconstructing professional identity for professional and interprofessional practice: a mixed methods study of joint training programmes in learning disability nursing and social work.

Authors:
David Sims

J Interprof Care 2011 Jul 9;25(4):265-71. Epub 2011 May 9.

School of Health and Social Care, University of Greenwich, Greenwich, UK.

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July 2011

Genome-wide functional screen identifies a compendium of genes affecting sensitivity to tamoxifen.

Proc Natl Acad Sci U S A 2012 Feb 11;109(8):2730-5. Epub 2011 Apr 11.

Breakthrough Breast Cancer Research Centre, Division of Breast Cancer Research, Institute of Cancer Research, London SW3 6JB, United Kingdom.

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February 2012